Setup

FastQC Summary

Summary statistics for all libraries
Filename Total Flagged As Poor Quality Sequence Length %GC
1_FAD_5_2Aligned.sortedByCoord.out.bam 24,871,513 0 23-76 45
1_FAD_5Aligned.sortedByCoord.out.bam 23,538,193 0 24-76 45
10_FS_1_2Aligned.sortedByCoord.out.bam 23,868,599 0 22-76 46
10_FS_1Aligned.sortedByCoord.out.bam 22,556,636 0 23-76 46
11__-_5_2Aligned.sortedByCoord.out.bam 23,202,507 0 23-76 45
11__-_5Aligned.sortedByCoord.out.bam 21,951,190 0 23-76 45
12__-_4_2Aligned.sortedByCoord.out.bam 24,120,299 0 23-76 45
12__-_4Aligned.sortedByCoord.out.bam 22,807,843 0 23-76 45
13__-_3_2Aligned.sortedByCoord.out.bam 18,641,066 0 24-76 45
13__-_3Aligned.sortedByCoord.out.bam 17,605,122 0 23-76 45
14__-_2_2Aligned.sortedByCoord.out.bam 26,437,496 0 23-76 45
14__-_2Aligned.sortedByCoord.out.bam 25,045,051 0 23-76 45
15__-_1_2Aligned.sortedByCoord.out.bam 28,019,239 0 23-76 45
15__-_1Aligned.sortedByCoord.out.bam 26,516,612 0 23-76 45
2_FAD_4_2Aligned.sortedByCoord.out.bam 24,398,666 0 24-76 46
2_FAD_4Aligned.sortedByCoord.out.bam 23,157,372 0 23-76 46
3_FAD_3_2Aligned.sortedByCoord.out.bam 24,672,290 0 22-76 45
3_FAD_3Aligned.sortedByCoord.out.bam 23,380,344 0 23-76 45
4_FAD_2_2Aligned.sortedByCoord.out.bam 23,388,035 0 23-76 45
4_FAD_2Aligned.sortedByCoord.out.bam 22,123,347 0 22-76 45
5_FS_2_2Aligned.sortedByCoord.out.bam 22,457,813 0 23-76 45
5_FS_2Aligned.sortedByCoord.out.bam 21,194,114 0 23-76 45
6_FAD_1_2Aligned.sortedByCoord.out.bam 25,406,590 0 23-76 46
6_FAD_1Aligned.sortedByCoord.out.bam 24,056,971 0 23-76 46
7_FS_5_2Aligned.sortedByCoord.out.bam 27,134,036 0 23-76 45
7_FS_5Aligned.sortedByCoord.out.bam 25,628,465 0 23-76 45
8_FS_4_2Aligned.sortedByCoord.out.bam 25,057,514 0 23-76 45
8_FS_4Aligned.sortedByCoord.out.bam 23,784,746 0 23-76 45
9_FS_3_2Aligned.sortedByCoord.out.bam 22,482,650 0 24-76 45
9_FS_3Aligned.sortedByCoord.out.bam 21,210,412 0 23-76 45

Read Totals

Library Sizes ranged between 17,605,122 and 28,019,239 reads.

Read totals for each library. Duplicated reads are conventionally an high overestimate at this point.

FastQC Summary

Summary of FastQC flags for each parameter

Per Base Sequence Quality

Heatmap showing mean base qualities for each library

Per Sequence Quality Scores

Heatmap showing mean sequence qualities for each library

Per Base Sequence Content

Heatmap of summed base distributions along each read

Per Sequence GC Content

GC Content Heatmap normalised to theoretical GC content in the Hsapiens Transcriptome

GC Content Distributions for all reads showing theoretical GC content from the Hsapiens Transcriptome

Sequence Length Distribution

Sequence Duplication Levels

Overrepresented Summary

Total overrepresented sequences for each library

Overrepresented Sequences

## The Overrepresented_sequences module was empty in 1_FAD_5_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 1_FAD_5Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 10_FS_1_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 10_FS_1Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 11__-_5_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 11__-_5Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 12__-_4_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 12__-_4Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 13__-_3_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 13__-_3Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 14__-_2_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 14__-_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 15__-_1_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 15__-_1Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 2_FAD_4_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 2_FAD_4Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 3_FAD_3_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 3_FAD_3Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 4_FAD_2_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 4_FAD_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 5_FS_2_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 5_FS_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 6_FAD_1_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 6_FAD_1Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 7_FS_5_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 7_FS_5Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 8_FS_4_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 8_FS_4Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 9_FS_3_2Aligned.sortedByCoord.out_fastqc.zip
## The Overrepresented_sequences module was empty in 9_FS_3Aligned.sortedByCoord.out_fastqc.zip
## No overrepresented sequences were detected by FastQC

Adapter Content

Universal Adapter Content

Kmer Content

## The Kmer_Content module was missing from 1_FAD_5_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 1_FAD_5Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 10_FS_1_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 10_FS_1Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 11__-_5_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 11__-_5Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 12__-_4_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 12__-_4Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 13__-_3_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 13__-_3Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 14__-_2_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 14__-_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 15__-_1_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 15__-_1Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 2_FAD_4_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 2_FAD_4Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 3_FAD_3_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 3_FAD_3Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 4_FAD_2_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 4_FAD_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 5_FS_2_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 5_FS_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 6_FAD_1_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 6_FAD_1Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 7_FS_5_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 7_FS_5Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 8_FS_4_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 8_FS_4Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 9_FS_3_2Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 9_FS_3Aligned.sortedByCoord.out_fastqc.zip
## No Kmers were detected by FastQC